PDB
5O9H
Resolution
2.7 Å
Released
Jan. 10, 2018
Receptor
C5a1
Class
A
Species
Homo sapiens
Ligand
NDT9513727
Function
Inverse agonist
Reference
10.1038/NATURE25025

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Ligand Amino Acid Generic Number Segment Interaction Type
NDT9513727 L125 3.41x41 TM3 hydrophobic
NDT9513727 A128 3.44x44 TM3 hydrophobic
NDT9513727 L156 4.45x45 TM4 hydrophobic
NDT9513727 V159 4.48x48 TM4 hydrophobic
NDT9513727 L163 4.52x52 TM4 hydrophobic
NDT9513727 L209 5.45x46 TM5 Van der Waals
NDT9513727 L209 5.45x46 TM5 polar (hydrogen bond with backbone)
NDT9513727 W213 5.49x49 TM5 aromatic (edge-to-face)
NDT9513727 W213 5.49x49 TM5 Van der Waals
NDT9513727 W213 5.49x49 TM5 polar (hydrogen bond)
NDT9513727 P214 5.50x50 TM5 hydrophobic
NDT9513727 P214 5.50x50 TM5 Van der Waals
NDT9513727 T217 5.53x53 TM5 Van der Waals
NDT9513727 L218 5.54x54 TM5 hydrophobic

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Snake plot — Download: PNG | SVG
ICL1 A K R ICL1ECL1 H H W P F ECL1ICL2 P I W C Q N F R ICL2ECL2 V V R E E Y F P P K V L C G V D Y S H ECL2ICL3 R A T R S ICL3ECL3 E P S ECL3N-term M D S F N Y T T P D Y G H Y D D K D T L D L N T P V D K T S N T L N-termC-term L P S L L R N V L T E E S V V R E S K S F T R S T V D T M A Q K T Q A V C-term R V P D I L A L V I F A V V F L V G V L G N A L V V W V T A F E T I N A I W F L N L A V A D F L S C L A L P I L F T S I V Q H G G A A C S I L P S L I L L N M Y A S I L L L A T I S A D R F L L V F K G A G L A W I A C A V A W G L A L L L T I P S F L Y R D K R R E R A V A I V R L V L G F L W P L L T L T I C Y T F I L L R T W S R T K T L K V V V A V V A S F F I F W L P Y Q V T G I M M S F L S P T F L L L K K L D S L C V S F A Y I N C C I N P I I Y V V A G Q G F R K S Q G R L
Helix box plot — Download: PNG | SVG A N G L V G V L F V V A F I V L A L I D 1 L N L A V A D F L S C L A L P I L F T S 2 T A L L L I S A Y M N L L I L S P L I S 3 A W I A C A V A W G L A L L L T I P S 4 Y C I T L T L L P W L F G L V L R V I A V 5 V A V V A S F F I F W L P Y Q V T G I M 6 I P N I C C N I Y A F S V C L S D L K 7

GPCRdb(A)
GPCRdb(A)
C5a1 receptor
TM3
3x41 3.41x41 L125
3x44 3.44x44 A128
TM4
4x45 4.45x45 A156
4x48 4.48x48 V159
4x52 4.52x52 L163
TM5
5x46 5.45x46 L209
5x49 5.49x49 W213
5x50 5.50x50 P214
5x53 5.53x53 T217
5x54 5.54x54 L218